PDB entry 5dbu

View 5dbu on RCSB PDB site
Description: Crystal structure of 2-deoxyribose-5-phosphate aldolase (1-220) from Streptococcus suis
Class: lyase
Keywords: 2-deoxyribose-5-phosphate aldolase, Streptococcus, LYASE
Deposited on 2015-08-22, released 2016-04-13
The last revision prior to the SCOPe 2.08 freeze date was dated 2016-04-13, with a file datestamp of 2016-04-08.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.16 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbua_
  • Chain 'B':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbub_
  • Chain 'C':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbuc_
  • Chain 'D':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbud_
  • Chain 'E':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbue_
  • Chain 'F':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbuf_
  • Chain 'G':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbug_
  • Chain 'H':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbuh_
  • Chain 'I':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbui_
  • Chain 'J':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbuj_
  • Chain 'K':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbuk_
  • Chain 'L':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbul_
  • Chain 'M':
    Compound: deoxyribose-phosphate aldolase
    Species: Streptococcus suis GZ1 [TaxId:423211]
    Gene: deoC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5dbum_
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5dbuA (A:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuA (A:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaim

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5dbuB (B:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuB (B:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvai

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5dbuC (C:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuC (C:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaim

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5dbuD (D:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuD (D:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaimn

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5dbuE (E:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuE (E:)
lnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctvig
fplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdklvk
viieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvkas
ggarsyedaiafieagasrigassgvaim

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5dbuF (F:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuF (F:)
klnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctvi
gfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdklv
kviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvka
sggarsyedaiafieagasrigassgvaim

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >5dbuG (G:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuG (G:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvai

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >5dbuH (H:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuH (H:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaim

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >5dbuI (I:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuI (I:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaim

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >5dbuJ (J:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuJ (J:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaimnga

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >5dbuK (K:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuK (K:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaimn

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >5dbuL (L:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuL (L:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaimn

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >5dbuM (M:)
gshmklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkv
ctvigfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasg
dklvkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdm
gvkasggarsyedaiafieagasrigassgvaimngaqadgdy

    Sequence, based on observed residues (ATOM records): (download) 
    >5dbuM (M:)
mklnkyidhtilkpettqeqvekilaeakeydfasvcvnptwvalaaeslkdsdvkvctv
igfplgantpavkafetkdaisngadeidmvinigalktgnydlvledikavvaasgdkl
vkviieaclltddekvkacqlsqeagadyvktstgfstggatvadvalmrktvgpdmgvk
asggarsyedaiafieagasrigassgvaimn